Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatgcatgttctgtgagaaatttctatttataatccattcctaaccactttccctcactttaactgataaaatggaattctgcgggcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAG
Basic information
species | Glycine max |
transcript | GLYMA12G07570.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 7
gtatgtatgcatgttctgtgagaaatttctatttataatccattcctaaccactttccctcactttaactgataaaatggaattctgcgggcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAG
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-----------------gtatggtgtttctacttgttcaggataattatacaagcggtgaactcaggcccaatttaactccatctaatctgcagGTGTGAGCTTGTTTTTGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG
upper sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G45300.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgtatgcatgttct---gtgagaaatttctatttataatccattcctaac-cactttccctcactttaactgataaaatggaattctgcgggcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAG
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gta-atccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctct--ctaaca--tctgtctctcctgagcagGTGTGAGCTTGTTTTTGAGAATTGCTTCGTTCCAGAGGAAAATATTCTAGACAAGGAAGGAAAAG
upper sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 3'ss of exon 9
gtatgtatgcatgtt-ctgtgagaaatttctatttataatccattcctaaccactttccctcactttaactgataa-aatggaattctgcgggcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAG
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gtaagcctcattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaatt------gcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGGGCAGGAAGGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccattcctaaccactttccctcactttaactgataaaatggaattctgcgggcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAG
tttaactgataaaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatgcatgttctgtgagaaatttctatttataatccattcctaaccactttccctcactttaactgataaaatggaattctgcgggcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG